Darwin's Surprise.(role of endogenous retrovirus in human evolution)

Thierry Heidmann's office, adjacent to the laboratory he runs at the Institut Gustave Roussy, on the southern edge of Paris, could pass for a museum of genetic catastrophe. Files devoted to the world's most horrifying infectious diseases fill the cabinets and line the shelves. There are thick folders for smallpox, Ebola virus, and various forms of influenza. SARS is accounted for, as are more obscure pathogens, such as feline leukemia virus, Mason-Pfizer monkey virus, and simian foamy virus, which is endemic in African apes. H.I.V., the best-known and most insidious of the viruses at work today, has its own shelf of files. The lab's beakers, vials, and refrigerators, secured behind locked doors with double-paned windows, all teem with viruses. Heidmann, a meaty, middle-aged man with wild eyebrows and a beard heavily flecked with gray, has devoted his career to learning what viruses might tell us about AIDS and various forms of cancer. "This knowledge will help us treat terrible diseases," he told me, nodding briefly toward his lab. "Viruses can provide answers to questions we have never even asked."

Viruses reproduce rapidly and often with violent results, yet they are so rudimentary that many scientists don't even consider them to be alive. A virus is nothing more than a few strands of genetic material wrapped in a package of protein--a parasite, unable to function on its own. In order to survive, it must find a cell to infect. Only then can any virus make use of its single talent, which is to take control of a host's cellular machinery and use it to churn out thousands of copies of itself. These viruses then move from one cell to the next, transforming each new host into a factory that makes even more virus. In this way, one infected cell soon becomes billions.

Nothing--not even the Plague--has posed a more persistent threat to humanity than viral diseases: yellow fever, measles, and smallpox have been causing epidemics for thousands of years. At the end of the First World War, fifty million people died of the Spanish flu; smallpox may have killed half a billion during the twentieth century alone. Those viruses were highly infectious, yet their impact was limited by their ferocity: a virus may destroy an entire culture, but if we die it dies, too. As a result, not even smallpox possessed the evolutionary power to influence humans as a species--to alter our genetic structure. That would require an organism to insinuate itself into the critical cells we need in order to reproduce: our germ cells. Only retroviruses, which reverse the usual flow of genetic code from DNA to RNA, are capable of that. A retrovirus stores its genetic information in a single-stranded molecule of RNA, instead of the more common double-stranded DNA. When it infects a cell, the virus deploys a special enzyme, called reverse transcriptase, that enables it to copy itself and then paste its own genes into the new cell's DNA. It then becomes part of that cell forever; when the cell divides, the virus goes with it. Scientists have long suspected that if a retrovirus happens to infect a human sperm cell or egg, which is rare, and if that embryo survives--which is rarer still--the retrovirus could take its place in the blueprint of our species, passed from mother to child, and from one generation to the next, much like a gene for eye color or asthma.

When the sequence of the human genome was fully mapped, in 2003, researchers also discovered something they had not anticipated: our bodies are littered with the shards of such retroviruses, fragments of the chemical code from which all genetic material is made. It takes less than two per cent of our genome to create all the proteins necessary for us to live. Eight per cent, however, is composed of broken and disabled retroviruses, which, millions of years ago, managed to embed themselves in the DNA of our ancestors. They are called endogenous retroviruses, because once they infect the DNA of a species they become part of that species. One by one, though, after molecular battles that raged for thousands of generations, they have been defeated by evolution. Like dinosaur bones, these viral fragments are fossils. Instead of having been buried in sand, they reside within each of us, carrying a record that goes back millions of years. Because they no longer seem to serve a purpose or cause harm, these remnants have often been referred to as "junk DNA." Many still manage to generate proteins, but scientists have never found one that functions properly in humans or that could make us sick.

Then, last year, Thierry Heidmann brought one back to life. Combining the tools of genomics, virology, and evolutionary biology, he and his colleagues took a virus that had been extinct for hundreds of thousands of years, figured out how the broken parts were originally aligned, and then pieced them together. After resurrecting the virus, the team placed it in human cells and found that their creation did indeed insert itself into the DNA of those cells. They also mixed the virus with cells taken from hamsters and cats. It quickly infected them all, offering the first evidence that the broken parts could once again be made infectious. The experiment could provide vital clues about how viruses like H.I.V. work. Inevitably, though, it also conjures images of Frankenstein's monster and Jurassic Park.

"If you think about this for five minutes, it is wild stuff," John Coffin told me when I visited him in his laboratory at Tufts University, where he is the American Cancer Society Research Professor. Coffin is one of the country's most distinguished molecular biologists, and was one of the first to explore the role of endogenous retroviruses in human evolution. "I understand that the idea of bringing something dead back to life is fundamentally frightening," he went on. "It's a power that science has come to possess and it makes us queasy, and it should. But there are many viruses that are more dangerous than these--more infectious, far riskier to work with, and less potentially useful.''

Thanks to steady advances in computing power and DNA technology, a talented undergraduate with a decent laptop and access to any university biology lab can assemble a virus with ease. Five years ago, as if to prove that point, researchers from the State University of New York at Stony Brook "built" a polio virus, using widely available information and DNA they bought through the mail. To test their "polio recipe," they injected the virus into mice. The animals first became paralyzed and then died. ("The reason we did it was to prove that it can be done,'' ...